Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI2543
Trapped Gene
Tle4 (ENSMUSG00000024642)
Vector Insertion
Chr 19: 14592464 - 14619277
Public Clones AD0137 (sanger) XS0497 (sanger) (cmhd) CMHD-GT_539E10-5S (cmhd)
Private Clones OST6284 (lexicon)
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000547744 (Chr19:14619278..14619352 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
TGACCATGGCAGAACTGAAC Chr19:14619290..14619309 59.68 50 TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000547744 (Chr19:14619278..14619352 -)
Downstram Exon
ENSMUSE00000642704 (Chr19:14592262..14592463 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
TGACCATGGCAGAACTGAAC Chr19:14619290..14619309 59.68 50 TGCTGAGCTTGGAGTTGTTG Chr19:14592422..14592441 60.17 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000324705 Chr19:14671858..14672473 GTGGTGTTCGCAGAGTTTGA Chr19:14672435..14672454 59.88 50
upstream ENSMUSE00000324695 Chr19:14671247..14671344 GCCTGCTCAACCCTTCAAAT Chr19:14671314..14671333 61.51 50
upstream ENSMUSE00000143959 Chr19:14670080..14670143 GCCAGCGAGAAGACAGAGAT Chr19:14670099..14670118 59.71 55
upstream ENSMUSE00000547755 Chr19:14668874..14668918 No primer for this exon
upstream ENSMUSE00000143948 Chr19:14638879..14638941 GCACAGGTCATTCCTTTCCT Chr19:14638889..14638908 59.14 50
upstream ENSMUSE00000547744 Chr19:14619278..14619352 TGACCATGGCAGAACTGAAC Chr19:14619290..14619309 59.68 50

*** Putative Vector Insertion (Chr 19: 14592464 - 14619277) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000642704 Chr19:14592262..14592463 TGCTGAGCTTGGAGTTGTTG Chr19:14592422..14592441 60.17 50
downstream ENSMUSE00000693631 Chr19:14590849..14590865 No primer for this exon
downstream ENSMUSE00000547675 Chr19:14542642..14542761 GAAACTGGCTGATGGGGATA Chr19:14542710..14542729 59.89 50
downstream ENSMUSE00000547731 Chr19:14541670..14541723 No primer for this exon
downstream ENSMUSE00000143962 Chr19:14541039..14541191 GTCTTGTCCAGGCCATTCTC Chr19:14541108..14541127 59.66 55
downstream ENSMUSE00000143949 Chr19:14539776..14539908 GGGTAGGTGCATCAGTTCGT Chr19:14539820..14539839 60 55
downstream ENSMUSE00000143957 Chr19:14539234..14539427 CTGGTCAGCTCTCCGTTCAT Chr19:14539312..14539331 60.41 55
downstream ENSMUSE00000143943 Chr19:14538799..14538875 CCTCCTGGAATGCCTGTTAG Chr19:14538783..14538802 59.69 55
downstream ENSMUSE00000371594 Chr19:14529231..14529480 GACCTTAACACAGCCCTTGC Chr19:14529263..14529282 59.74 55
downstream ENSMUSE00000693616 Chr19:14528197..14528207 No primer for this exon
downstream ENSMUSE00000547711 Chr19:14528069..14528316 ATTAAGGTGCGACCATCAGG Chr19:14528239..14528258 59.96 50
downstream ENSMUSE00000693615 Chr19:14528069..14528116 GATCCCACACTGCGATGTTA Chr19:14528069..14528088 59.53 50
downstream ENSMUSE00000143947 Chr19:14526910..14527057 TGTTGTCCAAACCACCTGTC Chr19:14526950..14526969 59.42 50
downstream ENSMUSE00000547696 Chr19:14526554..14526704 GGCAATAGCCCAATGAAAAG Chr19:14526661..14526680 59.55 45
downstream ENSMUSE00000547693 Chr19:14526133..14526209 GAATATGCTGGCCCCATAAG Chr19:14526114..14526133 59.39 50
downstream ENSMUSE00000706838 Chr19:14522640..14524331 GAGGGGTGGAGCATCAAATA Chr19:14523824..14523843 59.89 50
downstream ENSMUSE00000412382 Chr19:14522562..14524331 GAGGGGTGGAGCATCAAATA Chr19:14523824..14523843 59.89 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 TGGCTTTGGAATTGTCTTCAT Chr19:14598248..14598269 59.56 38.1 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 CCTTTGGTCTCTGTGCCATT Chr19:14598290..14598310 60.11 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 TTGGTAAATGAGCCAAACCA Chr19:14598336..14598356 59.01 40 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 CATTTTACTGCCCACGTGACT Chr19:14598295..14598316 60.04 47.62 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000024642